lamindb 0.59.1__py3-none-any.whl → 0.59.3__py3-none-any.whl

lamindb/__init__.py

@@ -53,7 +53,7 @@ Static classes & modules:
 
 """
 
-__version__ = "0.59.1"  # denote a release candidate for 0.1.0 with 0.1rc1
+__version__ = "0.59.3"  # denote a release candidate for 0.1.0 with 0.1rc1
 
 import os as _os
 

lamindb/_parents.py

@@ -277,7 +277,7 @@ def _record_label(record: Registry, field: Optional[str] = None):
         name = f'{record.transform.name.replace("&", "&")}'
         return (
             rf'<{TRANSFORM_EMOJIS.get(str(record.transform.type), "💫")} {name}<BR/><FONT COLOR="GREY" POINT-SIZE="10"'  # noqa
-            rf' FACE="Monospace">uid={record.uid}<BR/>type={record.transform.type},'
+            rf' FACE="Monospace">uid={record.transform.uid}<BR/>type={record.transform.type},'  # noqa
             rf" user={record.created_by.name}<BR/>run_at={format_field_value(record.run_at)}</FONT>>"  # noqa
         )
     elif isinstance(record, Transform):

lamindb/dev/storage/_backed_access.py

@@ -547,7 +547,7 @@ class AnnDataAccessorSubset(_AnnDataAttrsMixin):
         prepare_indices = None
         if self.indices is not None:
             oidx = self.indices[0]
-            if oidx != slice(None):
+            if isinstance(oidx, np.ndarray) or oidx != slice(None):
                 prepare_indices = oidx, slice(None)
         return AnnDataRawAccessor(
             self.storage["raw"],
@@ -575,7 +575,7 @@ class AnnDataRawAccessor(AnnDataAccessorSubset):
 
         if attrs_keys is None:
             attrs_keys = {}
-            if isinstance(var_raw, (h5py.Dataset, zarr.Array)):
+            if isinstance(var_raw, ArrayTypes):
                 attrs_keys["var"] = list(var_raw.dtype.fields.keys())
             else:
                 # for some reason list(var_raw.keys()) is very slow for zarr

{lamindb-0.59.1.dist-info → lamindb-0.59.3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: lamindb
-Version: 0.59.1
+Version: 0.59.3
 Summary: A data framework for biology.
 Author-email: Lamin Labs <open-source@lamin.ai>
 Requires-Python: >=3.8
@@ -9,8 +9,8 @@ Classifier: Programming Language :: Python :: 3.8
 Classifier: Programming Language :: Python :: 3.9
 Classifier: Programming Language :: Python :: 3.10
 Requires-Dist: lnschema_core==0.54.0
-Requires-Dist: lamindb_setup==0.57.0
-Requires-Dist: lamin_utils==0.11.5
+Requires-Dist: lamindb_setup==0.57.1
+Requires-Dist: lamin_utils==0.11.7
 Requires-Dist: lamin_cli==0.1.2
 Requires-Dist: rapidfuzz
 Requires-Dist: pyarrow
@@ -20,11 +20,13 @@ Requires-Dist: anndata>=0.8.0,<=0.10.2
 Requires-Dist: fsspec
 Requires-Dist: pandas
 Requires-Dist: graphviz
+Requires-Dist: psycopg2-binary
 Requires-Dist: botocore==1.31.17 ; extra == "aws"
 Requires-Dist: urllib3<2 ; extra == "aws"
 Requires-Dist: boto3==1.28.17 ; extra == "aws"
 Requires-Dist: aiobotocore==2.5.4 ; extra == "aws"
 Requires-Dist: fsspec[s3]==2023.9.0 ; extra == "aws"
+Requires-Dist: s3fs>=2023.1.0 ; extra == "aws"
 Requires-Dist: lnschema_bionty==0.34.0 ; extra == "bionty"
 Requires-Dist: pandas<2 ; extra == "dev"
 Requires-Dist: pre-commit ; extra == "dev"
@@ -35,14 +37,13 @@ Requires-Dist: coverage ; extra == "dev"
 Requires-Dist: pytest-cov ; extra == "dev"
 Requires-Dist: nbproject_test>=0.3.0 ; extra == "dev"
 Requires-Dist: faker-biology ; extra == "dev"
+Requires-Dist: lamin_vault ; extra == "dev"
 Requires-Dist: django-schema-graph ; extra == "erdiagram"
 Requires-Dist: readfcs>=1.1.7 ; extra == "fcs"
 Requires-Dist: fsspec[gs]==2023.9.0 ; extra == "gcp"
 Requires-Dist: nbproject==0.9.2 ; extra == "jupyter"
 Requires-Dist: nbstripout ; extra == "jupyter"
 Requires-Dist: nbconvert ; extra == "jupyter"
-Requires-Dist: psycopg2-binary ; extra == "postgres"
-Requires-Dist: lamin_vault ; extra == "postgres"
 Requires-Dist: zarr>=2.16.0 ; extra == "zarr"
 Project-URL: Home, https://github.com/laminlabs/lamindb
 Provides-Extra: aws
@@ -52,7 +53,6 @@ Provides-Extra: erdiagram
 Provides-Extra: fcs
 Provides-Extra: gcp
 Provides-Extra: jupyter
-Provides-Extra: postgres
 Provides-Extra: zarr
 
 [![Stars](https://img.shields.io/github/stars/laminlabs/lamindb?logo=GitHub&color=yellow)](https://github.com/laminlabs/lamindb)

{lamindb-0.59.1.dist-info → lamindb-0.59.3.dist-info}/RECORD

@@ -1,4 +1,4 @@
-lamindb/__init__.py,sha256=X4cQsVQClIneceQVrlAI0j-Y0YDDqygnxZhrkwy2eCA,2870
+lamindb/__init__.py,sha256=5uuMGrceLG-E0akIFHfSQeEZCvMj_1PD34qwDb1rQvc,2870
 lamindb/_dataset.py,sha256=Kqln9JKAIWtNmXq_Gmi9jruN4DWt4OcqDV-aB1-bPZk,15894
 lamindb/_delete.py,sha256=wiYmYnvIEHrDdmw1NiXyfCY9mBt-FI5XNFi5jyR_mkA,1968
 lamindb/_feature.py,sha256=BTss2B534SRbv1uj1MFydcrOxL-RyTsX5qMkdlbUy30,5562
@@ -6,7 +6,7 @@ lamindb/_feature_set.py,sha256=G63pwauDQ7jg4ydFCQLhu-lgO6tm56iQwUdRuNHeKHY,9233
 lamindb/_file.py,sha256=ceS4CKGsZwEgvUPPyjbJ0YgHWU5Jm7KNVhHy9eP7Gp8,38680
 lamindb/_filter.py,sha256=Xf6nAm8BXT8BgX6801KqOZfa73GVAx1oPFNb6rNymIo,1013
 lamindb/_from_values.py,sha256=GitpmKOqV6YHJggaCnJgGsRIHI_bnuLRVE2oo9W-SgE,11613
-lamindb/_parents.py,sha256=uMElAM7qL_iYflG4vyP5HeeQ5-Dj-XyDQQB6VrUpwFk,13801
+lamindb/_parents.py,sha256=qUFg_5kAr2VzsEbHsSnr3i1PgzjMMr1h00dQ-ugkFyU,13819
 lamindb/_query_manager.py,sha256=MXueabWHqft7GWNkzmWbhfTqdk-0mKU7nWrhXG6wpYQ,3693
 lamindb/_query_set.py,sha256=BYQlCpt11eodlVVV5BbOQ98h7h0gq-J4Pz0ZccgjqME,10206
 lamindb/_registry.py,sha256=6AUwb7tJRXyk2XOsp-6KeOgzkHjTQQAbaA10a7ZxuWY,16352
@@ -35,13 +35,13 @@ lamindb/dev/datasets/_core.py,sha256=_K1HuMjN8cwf8YWpepIXwHoNlepIuH7kqe7wIGBdcx0
 lamindb/dev/datasets/_fake.py,sha256=S8mNho-oSh1M9x9oOSsUBLLHmBAegsOLlFk6LnF81EA,942
 lamindb/dev/storage/__init__.py,sha256=mFvsMkAHHmO_xTM1UI-WGynDObnH0RCI2TXtFGhYfv8,392
 lamindb/dev/storage/_anndata_sizes.py,sha256=0XVzA6AQeVGPaGPrhGusKyxFgFjeo3qSN29hxb8D5E8,993
-lamindb/dev/storage/_backed_access.py,sha256=IWKLxvSWvzXGgysx1FLhfQ3mEoTxhtQXCvqBxpIpucw,22150
+lamindb/dev/storage/_backed_access.py,sha256=JeEdrth4BOTo5Fa_bzHWaApJzbRhT_gbrhRRqLjZKto,22166
 lamindb/dev/storage/_zarr.py,sha256=7W1Jos1QOOF3f41uML_arQoDTNPZVpRyP2m3SLWaCAo,2766
 lamindb/dev/storage/file.py,sha256=UHwm4LeK22J4pDuMjwLSqORlFEIwm6WWxWN-IfDuocc,8005
 lamindb/dev/storage/object.py,sha256=KGuOwwYuN2yCJxTXn9v0LanC0fjKwy_62P-WksHcf40,1140
 lamindb/setup/__init__.py,sha256=8-0F2C4Glx23-b8-D_1CBGgRBM5PppVhazhoXZYOLsg,275
 lamindb/setup/dev/__init__.py,sha256=tBty426VGF2PGqqt2XuNU-WgvOrbOp1aZBDowjLuzgA,242
-lamindb-0.59.1.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-lamindb-0.59.1.dist-info/WHEEL,sha256=EZbGkh7Ie4PoZfRQ8I0ZuP9VklN_TvcZ6DSE5Uar4z4,81
-lamindb-0.59.1.dist-info/METADATA,sha256=0dHJUJX_8ujuPyHP9dkj_9G7U1iI-s0_kfQ0GVAYaAo,3119
-lamindb-0.59.1.dist-info/RECORD,,
+lamindb-0.59.3.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+lamindb-0.59.3.dist-info/WHEEL,sha256=EZbGkh7Ie4PoZfRQ8I0ZuP9VklN_TvcZ6DSE5Uar4z4,81
+lamindb-0.59.3.dist-info/METADATA,sha256=pdR9Zc2aawpd0Qg9u7JZlu8dSh4ep68wxA3p1zefNyQ,3114
+lamindb-0.59.3.dist-info/RECORD,,